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All Outputs (7)

Visual Encodings for Networks with Multiple Edge Types (2020)
Conference Proceeding
Vogogias, T., Archambault, D. W., Bach, B., & Kennedy, J. (2020). Visual Encodings for Networks with Multiple Edge Types. In AVI '20: Proceedings of the International Conference on Advanced Visual Interfaces. https://doi.org/10.1145/3399715.3399827

This paper reports on a formal user study on visual encodings of networks with multiple edge types in adjacency matrices. Our tasks and conditions were inspired by real problems in computational biology. We focus on encodings in adjacency matrices, s... Read More about Visual Encodings for Networks with Multiple Edge Types.

Visualisation Support for Biological Bayesian Network Inference (2019)
Thesis
Vogogias, T. Visualisation Support for Biological Bayesian Network Inference. (Thesis). Edinburgh Napier University. Retrieved from http://researchrepository.napier.ac.uk/Output/2158180

Extracting valuable information from the visualisation of biological data and turning it into a network model is the main challenge addressed in this thesis. Biological networks are mathematical models that describe biological entities as nodes and t... Read More about Visualisation Support for Biological Bayesian Network Inference.

BayesPiles: Visualisation Support for Bayesian Network Structure Learning (2018)
Journal Article
Vogogias, A., Kennedy, J., Archambault, D., Bach, B., Smith, V. A., & Currant, H. (2018). BayesPiles: Visualisation Support for Bayesian Network Structure Learning. ACM transactions on intelligent systems and technology, 10(1), Article 5. https://doi.org/10.1145/3230623

We address the problem of exploring, combining and comparing large collections of scored, directed networks for understanding inferred Bayesian networks used in biology. In this feld, heuristic algorithms explore the space of possible network solutio... Read More about BayesPiles: Visualisation Support for Bayesian Network Structure Learning.

TetraploidSNPMap: Software for Linkage Analysis and QTL Mapping in Autotetraploid Populations Using SNP Dosage Data (2017)
Journal Article
Hackett, C. A., Boskamp, B., Vogogias, A., Preedy, K. F., & Milne, I. (2017). TetraploidSNPMap: Software for Linkage Analysis and QTL Mapping in Autotetraploid Populations Using SNP Dosage Data. Journal of Heredity, 108(4), 438-442. https://doi.org/10.1093/jhered/esx022

An earlier software application of ours, TetraploidMap for Windows, enabled linkage analysis and quantitative trait locus interval mapping to be carried out in an experimental cross of an autotetraploid species, using both dominant markers such as am... Read More about TetraploidSNPMap: Software for Linkage Analysis and QTL Mapping in Autotetraploid Populations Using SNP Dosage Data.

MLCut: exploring multi-level cuts in dendrograms for biological data (2016)
Conference Proceeding
Vogogias, A., Kennedy, J., Archambault, D., Anne Smith, V., & Currant, H. (2016). MLCut: exploring multi-level cuts in dendrograms for biological data. In C. Turkay, & T. Ruan Wan (Eds.), Computer Graphics and Visual Computing (CGVC). https://doi.org/10.2312/cgvc.20161288

Choosing a single similarity threshold for cutting dendrograms is not sufficient for performing hierarchical clustering analysis of heterogeneous data sets. In addition, alternative automated or semi-automated methods that cut dendrograms in multiple... Read More about MLCut: exploring multi-level cuts in dendrograms for biological data.

Hierarchical Clustering with Multiple-Height Branch-Cut Applied to Short Time-Series Gene Expression Data (2016)
Conference Proceeding
Vogogias, A., Kennedy, J., & Archambault, D. (2016). Hierarchical Clustering with Multiple-Height Branch-Cut Applied to Short Time-Series Gene Expression Data. In T. Isenberg, & F. Sadlo (Eds.), EuroVis 2016 - Posters (1-3). https://doi.org/10.2312/eurp.20161127

Rigid adherence to pre-specified thresholds and static graphical representations can lead to incorrect decisions on merging of clusters. As an alternative to existing automated or semi-automated methods, we developed a visual analytics approach for p... Read More about Hierarchical Clustering with Multiple-Height Branch-Cut Applied to Short Time-Series Gene Expression Data.

CO2Y the intelligent green solution: minimising carbon emissions by maximising shared travel opportunity. (2009)
Presentation / Conference
Urquhart, N. B., McEwan, T., Holden, R., & Vogogias, T. (2009, May). CO2Y the intelligent green solution: minimising carbon emissions by maximising shared travel opportunity. Paper presented at Scottish Transport Applications Research Conference

It is in the interests of everybody that the environment is protected. In view of the recent leaps in environmental awareness it would seem timely and sensible, therefore, for people to pool vehicle resources to minimise the damaging impact of emissi... Read More about CO2Y the intelligent green solution: minimising carbon emissions by maximising shared travel opportunity..